Fig. 2

Results of MLST analyses and assembly lengths for contaminated datasets. We contaminated simulated Listeria monocytogenes (Lm), Salmonella enterica (Se), and Escherichia coli (Ec) MiSeq data with reads from themselves as controls (Self); genomes from the same species at 0.05, 0.5, and 5% genetic distances; and genomes from different species (e.g., we contaminated Lm with Se and Ec, and we contaminated Se with Lm and Ec) at 10–50% levels. For each contamination type at each level, results for 8 datasets are shown. Panels a-c show allele counts, d-f numbers of missing and partial alleles, and g-i assembly lengths